# List of top-scoring protein chains for t2k.100-30-dssp-ebghstl hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.soe.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1yqyA 523 2.04e-05 d.92.1.14 123903 d.166.1.1 123904 1j7nA 776 6.71e-05 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 2ejqA 130 3.77e-03 1hyt 316 8.06e-02 1hyt 8tlnE 316 8.31e-02 1hyt d.92.1.2 59075 2oqcA 327 3.22e-01 1e7aA 585 3.87e-01 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1n5uA 585 5.01e-01 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1ovlA 271 5.61e-01 a.123.1.1 87455 1am4A 199 6.10e-01 1tx4A a.116.1.1 19100 1y791 680 7.30e-01 1v9dA 340 7.94e-01 a.207.1.1 100535 2ngrB 234 8.50e-01 1tx4A a.116.1.1 19105 1tx4A 198 9.30e-01 1tx4A a.116.1.1 19098 1jeoA 180 9.60e-01 c.80.1.3 66611 2cbyA 208 9.89e-01 c.14.1.1 130202 1c7kA 132 1.03e+00 1kuh d.92.1.1 59078 1kuh 132 1.04e+00 1kuh 3b9eA 584 1.23e+00 1jvsA 400 1.31e+00 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1h6zA 913 1.39e+00 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1q0qA 406 1.63e+00 a.69.3.1 104464 c.2.1.3 104465 d.81.1.3 104466 1bqbA 301 1.86e+00 1hyt d.92.1.2 58962 1u4gA 301 1.97e+00 d.92.1.2 107670 1o5kA 306 2.00e+00 c.1.10.1 92504 2om6A 235 2.15e+00 1wpaA 114 2.16e+00 h.4.17.1 121145 1y2kA 349 2.19e+00 a.211.1.2 122571 1jb0D 138 2.58e+00 1jb0D d.187.1.1 62823 1ezm 301 2.68e+00 1hyt 1qsdA 106 2.82e+00 1qsdA a.7.5.1 16335 1rm8A 169 3.08e+00 d.92.1.11 97660 1xawA 140 3.24e+00 h.4.17.1 121831 2jesA 503 3.29e+00 3c2qA 345 3.31e+00 1jyoA 130 3.37e+00 d.198.1.1 67483 1fkx 349 3.40e+00 1a4mA 1a4mA 349 3.42e+00 1a4mA c.1.9.1 29014 3bhwA 209 3.75e+00 1dq3A 454 3.77e+00 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 2ps1A 226 3.86e+00 2pl3A 236 3.92e+00 2py2A 136 3.99e+00 2vqeM 126 4.02e+00 1i1sA 96 4.17e+00 1bjaA a.4.5.9 16124 1qryA 80 4.31e+00 2hddA a.4.1.1 16016 2fbkA 181 4.44e+00 a.4.5.28 133247 1vflA 356 4.50e+00 c.1.9.1 120041 2i9fA 69 4.81e+00 1ohuA 175 4.89e+00 f.1.4.1 93029 1g5yA 238 4.90e+00 1lbd a.123.1.1 60294 1fbaA 361 4.92e+00 1fbaA c.1.10.1 29120 1w1iE 357 5.06e+00 c.1.9.1 109051 1vin 268 5.12e+00 1vin 3c37A 253 5.24e+00 1v3yA 192 5.27e+00 d.167.1.1 113508 1ylqA 96 5.42e+00 d.218.1.5 123671 1r1tA 122 5.53e+00 a.4.5.5 104769 2vtyA 182 5.55e+00 2drhA 361 5.57e+00 3cjnA 162 5.77e+00 2hddA 61 5.99e+00 2hddA a.4.1.1 15971 1smtA 122 6.25e+00 1smtA a.4.5.5 16109 2cchB 260 6.43e+00 a.74.1.1 130237 a.74.1.1 130238 1s9pA 227 6.52e+00 a.123.1.1 105384 1hwxA 501 6.77e+00 1hwyA c.2.1.7 30250 c.58.1.1 33898 1z5hA 780 6.80e+00 1lbd 282 6.86e+00 1lbd 2h1nA 567 6.86e+00 1lfb 99 6.91e+00 1lfb 1lfbA 99 6.91e+00 a.4.1.1 15989 1rl4A 188 7.03e+00 d.167.1.1 97636 1f0jA 377 7.62e+00 1f0jA a.211.1.2 19346 2v26A 784 7.97e+00 2j1dG 483 7.98e+00 1du0A 57 8.05e+00 2hddA a.4.1.1 15974 2r8wA 332 8.05e+00 1n25A 368 8.09e+00 c.37.1.20 85264 1svmA 377 8.11e+00 c.37.1.20 112126 2avdA 219 8.11e+00 c.66.1.1 127377 2jg0A 535 8.12e+00 1l0oA 150 8.14e+00 d.122.1.3 73403 1enh 54 8.26e+00 2hddA 2g62A 325 8.26e+00 a.268.1.1 134685 2gpuA 230 8.91e+00 a.123.1.1 135493 2vhjA 331 8.95e+00 1bjaA 95 8.98e+00 1bjaA a.4.5.9 16122 1tbbA 332 9.03e+00 a.211.1.2 106741 1w44A 331 9.11e+00 c.37.1.11 114147 1ois 223 9.33e+00 1a36A 1oisA 223 9.33e+00 e.15.1.1 43267 2q22A 139 9.37e+00 1z7xW 461 9.45e+00 c.10.1.1 124675 1akhA 61 9.57e+00 1akhA a.4.1.1 15980 2qruA 274 9.72e+00 2h1tA 188 9.82e+00 1f1sA 814 9.85e+00 a.102.3.2 64928 b.1.18.2 64929 b.24.1.1 64930 b.30.5.2 64931 1vf8A 377 9.86e+00 c.1.8.5 120029 d.26.3.1 120030 2fp4B 395 1.03e+01 c.23.4.1 133897 d.142.1.4 133898 2gk6A 624 1.03e+01 1sv0C 82 1.07e+01 a.60.1.1 106037 1wh8A 111 1.10e+01 a.35.1.7 114636 1fpzA 212 1.11e+01 1fpzA c.45.1.1 59976 2p1tA 240 1.11e+01 2ob9A 130 1.12e+01 1j3gA 187 1.12e+01 d.118.1.1 77075 2nrlA 147 1.15e+01 1e9lA 377 1.15e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 3cmnA 372 1.15e+01 2bxkA 585 1.16e+01 a.126.1.1 129431 a.126.1.1 129432 1j0mA 752 1.18e+01 a.102.3.2 83910 b.24.1.1 83911 b.30.5.2 83912 1zgyA 272 1.23e+01 a.123.1.1 125064 1b72A 97 1.23e+01 2hddA a.4.1.1 16000 1j7qA 86 1.24e+01 1j7rA a.39.1.5 62700 1v54D 147 1.27e+01 f.23.1.1 100325 1z77A 200 1.28e+01 a.4.1.9 124588 a.121.1.1 124589 2in1A 175 1.30e+01 d.20.1.4 137521 2fkcA 247 1.30e+01 1iae 200 1.30e+01 1iae 2pv4A 145 1.32e+01 3cskA 711 1.32e+01 2iekA 200 1.33e+01 1n46A 258 1.34e+01 a.123.1.1 85315 1mml 265 1.38e+01 1mml 1iab 200 1.38e+01 1iae 1iabA 200 1.38e+01 d.92.1.8 40312 1eudB 396 1.39e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 2h5nA 133 1.40e+01 1hg4A 279 1.44e+01 1lbd a.123.1.1 19333 2id6A 202 1.44e+01 1q87A 221 1.45e+01 e.47.1.1 96192 1yrnA 61 1.45e+01 1akhA a.4.1.1 15981 1y7mA 164 1.47e+01 b.160.1.1 122696 d.7.1.1 122697 2vliA 183 1.51e+01 2q88A 257 1.51e+01 1xkrA 206 1.53e+01 d.252.1.1 115421 1xiuA 230 1.53e+01 1h8eA 510 1.54e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 2v1fA 153 1.59e+01 a.1.1.2 140055 2ixmA 303 1.60e+01 a.268.1.1 137776 2e2rA 244 1.63e+01 2ckiA 262 1.63e+01 2bkhA 814 1.69e+01 1hddC 61 1.70e+01 2hddA a.4.1.1 15978 1vp6A 138 1.71e+01 b.82.3.2 113939 1v38A 78 1.72e+01 a.60.1.2 100280 1eyvA 156 1.73e+01 1eyvA a.79.1.1 18446 3pfk 319 1.75e+01 3pfk 1prgA 270 1.78e+01 2prgA a.123.1.1 19314 1qb7A 236 1.81e+01 1qb7A c.61.1.1 34087 2hi4A 495 1.83e+01 1x6iA 91 1.84e+01 1ywfA 296 1.87e+01 c.45.1.5 124144 2gjdA 157 1.90e+01 1q6aA 107 1.92e+01 a.186.1.1 95966 1rwtA 232 1.93e+01 f.43.1.1 97992 1ijdB 42 1.94e+01 f.3.1.1 66156 2occA 514 1.94e+01 2occA f.24.1.1 43518 1fcyA 236 1.95e+01 2lbd a.123.1.1 19282 2f4mB 61 1.97e+01 a.189.1.1 132931 2d0tA 406 2.00e+01 a.266.1.2 131093 1voqa 90 2.01e+01 3bqwA 351 2.02e+01 2prrA 197 2.03e+01 1zcjA 463 2.08e+01 1tp4A 97 2.08e+01 a.189.1.1 107183 1gx1A 160 2.09e+01 d.79.5.1 70675 2iyaA 424 2.11e+01 1zgsA 447 2.12e+01 2ig8A 144 2.12e+01 1jihA 531 2.13e+01 d.240.1.1 90374 e.8.1.7 90375 830cA 168 2.14e+01 1ck7A d.92.1.11 40400 1v54A 514 2.18e+01 f.24.1.1 100321 1iqpA 327 2.19e+01 a.80.1.1 62649 c.37.1.20 62650 2a2jA 246 2.22e+01 b.45.1.1 126033 1k9tA 540 2.23e+01 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 2z84A 218 2.25e+01 2z6oA 172 2.26e+01 1jqoA 970 2.28e+01 c.1.12.3 77160 1go3F 107 2.31e+01 a.60.8.2 65407 2qecA 204 2.32e+01 2jdiA 510 2.32e+01 1r6uA 437 2.32e+01 c.26.1.1 97163 1dgwY 93 2.34e+01 1caxB 1t7lA 766 2.35e+01 1gvhA 396 2.36e+01 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1ctn 540 2.37e+01 1ctn 1ts3A 194 2.41e+01 1aw7A b.40.2.2 25168 d.15.6.1 37757 1kd6A 179 2.42e+01 b.97.1.1 68459 1edqA 540 2.45e+01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1g2nA 264 2.46e+01 1lbd a.123.1.1 60227 1fcjA 322 2.46e+01 1oasA c.79.1.1 35289 1yovA 537 2.49e+01 c.111.1.2 123785 1tzvA 142 2.49e+01 a.79.1.1 107526 1z90A 469 2.56e+01 b.81.1.4 124732 c.68.1.5 124733 2i53A 258 2.60e+01 1iazA 179 2.64e+01 1iazA b.97.1.1 62131 1ar1A 558 2.64e+01 2occA f.24.1.1 43618 2blfA 373 2.64e+01 3tssA 194 2.66e+01 b.40.2.2 25160 d.15.6.1 37749 1exzA 141 2.67e+01 1exzA a.26.1.2 16877 1ku3A 73 2.70e+01 a.4.13.2 73000 1vraB 215 2.72e+01 2rghA 571 2.72e+01 1x0lA 333 2.74e+01 1ema 236 2.78e+01 1ema 1r1dA 247 2.85e+01 c.69.1.29 96813 2b67A 204 2.87e+01 d.90.1.1 127970 1wnyA 186 2.88e+01 1cqwA 295 2.90e+01 1b6g c.69.1.8 34679 2o7cA 398 2.90e+01 1q5dA 419 2.92e+01 a.104.1.1 95891 1v2zA 111 2.93e+01 a.186.1.1 108300 2b8wA 328 3.00e+01 2c3nA 247 3.01e+01 2gbbA 156 3.01e+01 1udzA 182 3.02e+01 b.51.1.1 99239 1g1eB 89 3.02e+01 1g1eB a.59.1.1 17931 2oodA 475 3.02e+01 1jvrA 137 3.08e+01 a.61.1.2 18132 2uwjF 32 3.09e+01 1n3gA 113 3.10e+01 d.204.1.1 79962 2ddhA 661 3.11e+01 a.29.3.2 131394 a.29.3.2 131395 e.6.1.2 131396 1k9uA 78 3.11e+01 a.39.1.10 84348 1otjA 283 3.14e+01 b.82.2.5 93517 2polA 366 3.14e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 2fnuA 375 3.15e+01 c.67.1.4 133831 3bpdA 100 3.15e+01 1fjgM 126 3.17e+01 1fjfM a.156.1.1 16293 2ak3A 226 3.20e+01 1zin c.37.1.1 31892 g.41.2.1 45193 1xvlA 321 3.20e+01 c.92.2.2 122380 1w77A 228 3.21e+01 c.68.1.13 120679 2r8jA 554 3.24e+01 2awkA 228 3.25e+01 1stzA 338 3.25e+01 a.4.5.51 106009 d.110.2.3 106010 2akaA 776 3.27e+01 1a35A 538 3.28e+01 1a36A d.163.1.2 42171 e.15.1.1 43264 2fphX 165 3.29e+01 1ryp1 222 3.30e+01 1ryp1 3bfnA 379 3.30e+01 3co4A 312 3.31e+01 1nw8A 319 3.31e+01 c.66.1.11 86292 1u08A 386 3.33e+01 c.67.1.1 107543 1xeoA 168 3.41e+01 d.167.1.1 121913 1tyfA 193 3.44e+01 1tyfA c.14.1.1 30885 1sqnA 261 3.44e+01 a.123.1.1 105944 2ywwA 149 3.45e+01 2cxxA 190 3.45e+01 c.37.1.8 131013 1gwyA 175 3.48e+01 b.97.1.1 83356 1wk8A 194 3.49e+01 2e9xA 149 3.54e+01 2pgeA 377 3.54e+01 1bn6A 294 3.55e+01 1bn6A c.69.1.8 34678 1vmbA 140 3.57e+01 d.58.14.1 113672 1mw5A 187 3.58e+01 d.259.1.1 91477 2cfuA 658 3.60e+01 1m9uA 241 3.60e+01 b.47.1.2 74601 2dqbA 376 3.61e+01 1pufA 77 3.63e+01 a.4.1.1 95131 1bn7A 294 3.64e+01 1bn6A c.69.1.8 34677 2bhwA 232 3.64e+01 2aq2B 237 3.74e+01 b.40.2.2 127146 d.15.6.1 127147 1b79A 119 3.75e+01 1b79A a.81.1.1 18451 1ejxA 100 3.75e+01 d.8.1.1 83182 1a28A 256 3.76e+01 1a28A a.123.1.1 19290 1gpuA 680 3.79e+01 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1lvk 762 3.82e+01 1lvk 1jt7A 146 3.83e+01 b.42.1.1 67255 1woyA 500 3.84e+01 a.27.1.1 121130 c.26.1.1 121131 1uayA 242 3.86e+01 c.2.1.2 88390 2vhsA 217 3.89e+01 2prgA 271 3.90e+01 2prgA a.123.1.1 19311 1wzdA 215 3.93e+01 a.132.1.1 121493 2ivyA 101 3.93e+01 1nexB 464 3.94e+01 a.158.1.1 80443 b.69.4.1 80444 2opwA 291 3.94e+01 1lkxA 697 3.98e+01 c.37.1.9 73981 3ccyA 203 4.00e+01